miRNA: 3'- aAGCU-UUCGac-GCGGCCCua---------CGACAG- -5'
miRNA: 3'- aAGCUUUCGa------CGCG-GCCCU--ACG------ACAG- -5'
miRNA: 3'- aAGCUu-UCG--------ACGCGGCCCUACGacag -5'
miRNA: 3'- -AAGCUUUCGACGCGGCCCUACGACAG- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 24830 | 5' | -56.2 | NC_005284.1 | + | 45271 | 0.66 | 0.619032 |
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Target: 5'- cUCGAcGAGCgcuCGCCGGGcgccgacccacGCUGUCg -3' miRNA: 3'- aAGCU-UUCGac-GCGGCCCua---------CGACAG- -5' |
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| 24830 | 5' | -56.2 | NC_005284.1 | + | 50912 | 0.66 | 0.610099 |
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Target: 5'- aUCGAGAGCggagauaGCGCaUGGGAcgUGCgggggaUGUCg -3' miRNA: 3'- aAGCUUUCGa------CGCG-GCCCU--ACG------ACAG- -5' |
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| 24830 | 5' | -56.2 | NC_005284.1 | + | 39516 | 0.7 | 0.356342 |
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Target: 5'- gUCGGucGGCugugccgaUGCGCCGGGAUGCg--- -3' miRNA: 3'- aAGCUu-UCG--------ACGCGGCCCUACGacag -5' |
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| 24830 | 5' | -56.2 | NC_005284.1 | + | 42547 | 1.08 | 0.000745 |
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Target: 5'- gUUCGAAAGCUGCGCCGGGAUGCUGUCg -3' miRNA: 3'- -AAGCUUUCGACGCGGCCCUACGACAG- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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